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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ), 'gf_id' => 'ORTHO05D000742', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ), 'data_identifier' => 'ORTHO05D000742', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'ORTHO05D000742', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '639', 'num_species' => '93' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p19860' => 'bna', 'A03p37320' => 'bna', 'A03p48870' => 'bna', 'A04p06970' => 'bna', 'A04p27430' => 'bna', 'A05p09880' => 'bna', 'A05p37510' => 'bna', 'A09p45510' => 'bna', 'Aa31LG10G7510' => 'aar', 'Aa31LG3G5720' => 'aar', 'Aa31LG5G21070' => 'aar', 'Aa31sc665G20' => 'aar', 'Actinidia06184' => 'ach', 'Actinidia07278' => 'ach', 'Actinidia07279' => 'ach', 'Actinidia24255' => 'ach', 'Actinidia24256' => 'ach', 'Actinidia26804' => 'ach', 'Actinidia37750' => 'ach', 'Actinidia37751' => 'ach', 'Ah.02g115710' => 'amhyb', 'Ah.08g221970' => 'amhyb', 'Ah.12g059280' => 'amhyb', 'Ah.15g099000' => 'amhyb', 'AL3G23400' => 'aly', 'AL4G32030' => 'aly', 'AL5G33100' => 'aly', 'Aqoxy1G00648' => 'aox', 'Aqoxy1G00650' => 'aox', 'arahy.Tifrunner.gnm1.ann1.67TJNT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RTT5QY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TG9TSU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UUM6SM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VTD8RL' => 'arhy', 'AT2G35930' => 'ath', 'AT3G11840' => 'ath', 'AT3G52450' => 'ath', 'ATR0757G027' => 'atr', 'ATR0772G077' => 'atr', 'ATR0772G103' => 'atr', 'Atru.chr3.3104' => 'acertr', 'Atru.chr3.3105' => 'acertr', 'Atru.chr8.1342' => 'acertr', 'Atru.chr8.1343' => 'acertr', 'Atru.chr8.1348' => 'acertr', 'AUR62001555' => 'cqu', 'AUR62001556' => 'cqu', 'AUR62020225' => 'cqu', 'AUR62020226' => 'cqu', 'AUR62020227' => 'cqu', 'AUR62030729' => 'cqu', 'AUR62030730' => 'cqu', 'AUR62036368' => 'cqu', 'AUR62036370' => 'cqu', 'BcaB01g00367' => 'bca', 'BcaB01g03868' => 'bca', 'BcaB02g08569' => 'bca', 'BcaB02g09395' => 'bca', 'BcaB02g09396' => 'bca', 'BcaB04g18664' => 'bca', 'BcaB04g21113' => 'bca', 'BcaB04g21114' => 'bca', 'BcaB06g25571' => 'bca', 'BcaB06g28895' => 'bca', 'BcaB06g28899' => 'bca', 'BcaC01g04076' => 'bca', 'BcaC01g05685' => 'bca', 'BcaC02g09258' => 'bca', 'BcaC02g11698' => 'bca', 'BcaC05g29318' => 'bca', 'BcaC05g29320' => 'bca', 'BcaC06g32914' => 'bca', 'BcaC06g32915' => 'bca', 'BcaC06g33390' => 'bca', 'BcaC07g39609' => 'bca', 'BcaC09g48191' => 'bca', 'BolC1t05286H' => 'bol', 'BolC3t14722H' => 'bol', 'BolC3t16794H' => 'bol', 'BolC4t22866H' => 'bol', 'BolC4t22867H' => 'bol', 'BolC4t25639H' => 'bol', 'BolC4t27975H' => 'bol', 'BolC5t34274H' => 'bol', 'BolC7t45214H' => 'bol', 'BolC8t50389H' => 'bol', 'BraA01t04157Z' => 'bra', 'BraA03t11239Z' => 'bra', 'BraA03t12892Z' => 'bra', 'BraA03t13989Z' => 'bra', 'BraA04t16395Z' => 'bra', 'BraA04t18241Z' => 'bra', 'BraA05t19936Z' => 'bra', 'BraA05t22549Z' => 'bra', 'BraA09t40013Z' => 'bra', 'C03p23210' => 'bna', 'C03p45310' => 'bna', 'C04p12200' => 'bna', 'C04p40600' => 'bna', 'C04p64980' => 'bna', 'C05p56070' => 'bna', 'C07p46970' => 'bna', 'C08p27690' => 'bna', 'CAN.G104.12' => 'can', 'CAN.G226.16' => 'can', 'CAN.G226.20' => 'can', 'CAN.G574.1' => 'can', 'CAN.G574.2' => 'can', 'CAN.G689.27' => 'can', 'CAN.G689.29' => 'can', 'CAN.G919.47' => 'can', 'CANSAT54G0485' => 'cansat', 'CANSAT54G0950' => 'cansat', 'CANSAT64G0361' => 'cansat', 'CANSAT64G2447' => 'cansat', 'CARHR086390' => 'chi', 'CARHR086400' => 'chi', 'CARHR130190' => 'chi', 'CARHR162220' => 'chi', 'Carub.0003s1119' => 'cru', 'Carub.0004s1768' => 'cru', 'Carub.0005s1884' => 'cru', 'Ca_01632_v3' => 'car', 'Ca_09061_v3' => 'car', 'Ca_11694_v3' => 'car', 'Ca_27134_v3' => 'car', 'Ca_30873_v3' => 'car', 'Cc01_g07700' => 'ccan', 'Cc06_g06620' => 'ccan', 'Cc06_g06630' => 'ccan', 'CDE02G1688' => 'cde', 'CDE04G3568' => 'cde', 'CDE06G2208' => 'cde', 'CDE06G2422' => 'cde', 'CDE12G0227' => 'cde', 'Cfa008322' => 'cfa', 'Cfa010177' => 'cfa', 'Cfa020036' => 'cfa', 'Cfa020041' => 'cfa', 'Cfa020042' => 'cfa', 'Ciclev10011844m.g' => 'ccl', 'Ciclev10011847m.g' => 'ccl', 'Ciclev10028557m.g' => 'ccl', 'Ciclev10028564m.g' => 'ccl', 'CiPaw.09G021300' => 'cil', 'CiPaw.09G021400' => 'cil', 'CiPaw.10G018100' => 'cil', 'CiPaw.10G018200' => 'cil', 'CiPaw.13G128800' => 'cil', 'ClCG02G022440' => 'cla', 'ClCG03G012200' => 'cla', 'ClCG03G012260' => 'cla', 'ClCG04G005140' => 'cla', 'ClCG10G018310' => 'cla', 'COL.COLO4_25416' => 'col', 'COL.COLO4_25420' => 'col', 'COL.COLO4_29566' => 'col', 'COL.COLO4_29567' => 'col', 'Cpa.g.sc103.13' => 'cpa', 'Cpa.g.sc103.14' => 'cpa', 'Cpa.g.sc104.23' => 'cpa', 'Cpa.g.sc104.24' => 'cpa', 'CsaV3_1G043840' => 'csa', 'CsaV3_1G043860' => 'csa', 'CsaV3_3G038010' => 'csa', 'CsaV3_4G013480' => 'csa', 'CsaV3_6G038570' => 'csa', 'CSS0004395' => 'camsi', 'CSS0012881' => 'camsi', 'CSS0013323' => 'camsi', 'CSS0019109' => 'camsi', 'CSS0021887' => 'camsi', 'CSS0030305' => 'camsi', 'CSS0035562' => 'camsi', 'DCAR_012243' => 'dca', 'DCAR_012244' => 'dca', 'DCAR_016915' => 'dca', 'DCAR_018204' => 'dca', 'DCAR_020698' => 'dca', 'DCAR_020699' => 'dca', 'DCAR_020700' => 'dca', 'Dinv12342' => 'din', 'Dinv12343' => 'din', 'Dinv18842' => 'din', 'Dinv18843' => 'din', 'Dinv18845' => 'din', 'Dinv31763' => 'din', 'Dinv31764' => 'din', 'Dinv33534' => 'din', 'Dinv33536' => 'din', 'Dinv33538' => 'din', 'Duzib093G0180' => 'dzi', 'Duzib093G1915' => 'dzi', 'Duzib106G0989' => 'dzi', 'Duzib128G1255' => 'dzi', 'Duzib128G1775' => 'dzi', 'Duzib150G0441' => 'dzi', 'Duzib150G1488' => 'dzi', 'Duzib168G2375' => 'dzi', 'Duzib170G0174' => 'dzi', 'Duzib170G0490' => 'dzi', 'ECA233G0918' => 'eca', 'ECA233G5674' => 'eca', 'ECA238G1193' => 'eca', 'ECA238G3677' => 'eca', 'ECA238G3862' => 'eca', 'ECA248G0315' => 'eca', 'ECA248G1408' => 'eca', 'EL10Ac5g11863' => 'bvu', 'EL10Ac5g11865' => 'bvu', 'EL10Ac7g16290' => 'bvu', 'EL10Ac7g16291' => 'bvu', 'EL10As4g23408' => 'bvu', 'Eucgr.A01596' => 'egr', 'Eucgr.A02579' => 'egr', 'Eucgr.A02580' => 'egr', 'Eucgr.A02581' => 'egr', 'Eucgr.A02582' => 'egr', 'Eucgr.A02583' => 'egr', 'Eucgr.A02584' => 'egr', 'Eucgr.A02586' => 'egr', 'Eucgr.B03814' => 'egr', 'Eucgr.J00575' => 'egr', 'Eucgr.K01926' => 'egr', 'Eucgr.K01927' => 'egr', 'Eucgr.K01928' => 'egr', 'Eucgr.K01929' => 'egr', 'FAN02G4568' => 'fan', 'FAN05G2037' => 'fan', 'FAN05G3024' => 'fan', 'FAN05G3678' => 'fan', 'FAN05G5681' => 'fan', 'FAN09G1453' => 'fan', 'FAN09G3406' => 'fan', 'FAN11G0635' => 'fan', 'FAN14G0635' => 'fan', 'FAN14G3832' => 'fan', 'FAN16G2662' => 'fan', 'FAN21G2467' => 'fan', 'FAN21G2675' => 'fan', 'FAN25G0092' => 'fan', 'FAN25G3401' => 'fan', 'FvH4_3g26340' => 'fve', 'FvH4_3g26390' => 'fve', 'FvH4_6g20390' => 'fve', 'FvH4_6g20400' => 'fve', 'Glyma.02G195900' => 'gma', 'Glyma.02G196301' => 'gma', 'Glyma.03G202600' => 'gma', 'Glyma.10G081900' => 'gma', 'Glyma.10G262600' => 'gma', 'Glyma.11G178046' => 'gma', 'Glyma.12G095000' => 'gma', 'Glyma.12G095100' => 'gma', 'Glyma.12G188900' => 'gma', 'Glyma.12G189000' => 'gma', 'Glyma.13G312700' => 'gma', 'Glyma.13G312800' => 'gma', 'Glyma.19G199300' => 'gma', 'Glyma.19G200200' => 'gma', 'Gohir.A01G201100' => 'ghi', 'Gohir.A04G057200' => 'ghi', 'Gohir.A05G077950' => 'ghi', 'Gohir.A07G113400' => 'ghi', 'Gohir.A09G099900' => 'ghi', 'Gohir.A09G100000' => 'ghi', 'Gohir.A09G133700' => 'ghi', 'Gohir.A09G133800' => 'ghi', 'Gohir.D01G191000' => 'ghi', 'Gohir.D04G091600' => 'ghi', 'Gohir.D04G091616' => 'ghi', 'Gohir.D05G080800' => 'ghi', 'Gohir.D07G117000' => 'ghi', 'Gohir.D09G099300' => 'ghi', 'Gohir.D09G099400' => 'ghi', 'Gohir.D09G129900' => 'ghi', 'Gohir.D09G130001' => 'ghi', 'Gohir.D09G130101' => 'ghi', 'Gorai.001G125700' => 'gra', 'Gorai.002G234800' => 'gra', 'Gorai.006G116300' => 'gra', 'Gorai.006G116400' => 'gra', 'Gorai.006G148900' => 'gra', 'Gorai.006G149000' => 'gra', 'Gorai.009G082600' => 'gra', 'Gorai.009G396600' => 'gra', 'Gorai.009G396700' => 'gra', 'GSVIVG01011139001' => 'vvi', 'GSVIVG01011140001' => 'vvi', 'GSVIVG01037585001' => 'vvi', 'HanXRQChr01g0025771' => 'han', 'HanXRQChr01g0025781' => 'han', 'HanXRQChr02g0050161' => 'han', 'HanXRQChr02g0053251' => 'han', 'HanXRQChr02g0059801' => 'han', 'HanXRQChr08g0216341' => 'han', 'HanXRQChr08g0224641' => 'han', 'HanXRQChr11g0347061' => 'han', 'HanXRQChr11g0347081' => 'han', 'HanXRQChr11g0347091' => 'han', 'HanXRQChr12g0366171' => 'han', 'HanXRQChr13g0398551' => 'han', 'HanXRQChr14g0431611' => 'han', 'HanXRQChr15g0494851' => 'han', 'Haze_13701' => 'cav', 'Haze_20165' => 'cav', 'Haze_20173' => 'cav', 'Haze_20174' => 'cav', 'Haze_23561' => 'cav', 'Haze_23568' => 'cav', 'Hma1.2p1_0101F.1_g049500' => 'hma', 'HPP92_001097' => 'vpl', 'HPP92_003215' => 'vpl', 'HPP92_004391' => 'vpl', 'HPP92_009311' => 'vpl', 'HPP92_016163' => 'vpl', 'HPP92_026214' => 'vpl', 'HPP92_027186' => 'vpl', 'HPP92_027187' => 'vpl', 'Lalb_Chr01g0017841' => 'lal', 'Lalb_Chr02g0154431' => 'lal', 'Lalb_Chr02g0154441' => 'lal', 'Lalb_Chr06g0172621' => 'lal', 'Lalb_Chr19g0136241' => 'lal', 'Lalb_Chr19g0136251' => 'lal', 'Lalb_Chr20g0111331' => 'lal', 'Lalb_Chr24g0393381' => 'lal', 'Lalb_Chr25g0287971' => 'lal', 'Lj1C1054G3' => 'lonja', 'Lj1C1054T2' => 'lonja', 'Lj1C268T4' => 'lonja', 'Lj1C268T5' => 'lonja', 'Lj1g0027254' => 'lja', 'Lj1P1055T24' => 'lonja', 'Lj2A958T11' => 'lonja', 'Lj2C959T2' => 'lonja', 'Lj2P958T7' => 'lonja', 'Lj2P958T9' => 'lonja', 'Lj2P960T8' => 'lonja', 'Lj3g0009101' => 'lja', 'Lj3g0012262' => 'lja', 'Lj3g0014808' => 'lja', 'Lj5g0016510' => 'lja', 'Lj5g0025220' => 'lja', 'Lsat_1_v5_gn_1_58201' => 'lsa', 'Lsat_1_v5_gn_1_58241' => 'lsa', 'Lsat_1_v5_gn_1_58260' => 'lsa', 'Lsat_1_v5_gn_1_58280' => 'lsa', 'Lsat_1_v5_gn_2_34501' => 'lsa', 'Lsat_1_v5_gn_2_35740' => 'lsa', 'Lsat_1_v5_gn_2_53840' => 'lsa', 'Lsat_1_v5_gn_2_53860' => 'lsa', 'Lsat_1_v5_gn_6_33780' => 'lsa', 'Lsat_1_v5_gn_8_35861' => 'lsa', 'Manes.04G060800' => 'mes', 'Manes.05G020400' => 'mes', 'Manes.08G034000' => 'mes', 'Manes.08G034100' => 'mes', 'Manes.09G045900' => 'mes', 'Manes.09G046000' => 'mes', 'Manes.11G101300' => 'mes', 'Mapoly0021s0064' => 'mpo', 'MBI04_g32675_MAGBIO' => 'mbi', 'MBI12_g28747_MAGBIO' => 'mbi', 'MBI12_g47824_MAGBIO' => 'mbi', 'MBI12_g48106_MAGBIO' => 'mbi', 'MBI17_g24509_MAGBIO' => 'mbi', 'MBI17_g24662_MAGBIO' => 'mbi', 'MBI17_g24665_MAGBIO' => 'mbi', 'MBI17_g32403_MAGBIO' => 'mbi', 'MD03G1156000' => 'mdo', 'MD11G1173500' => 'mdo', 'MD11G1173600' => 'mdo', 'MD12G1040800' => 'mdo', 'MD12G1040900' => 'mdo', 'MD14G1039900' => 'mdo', 'MD14G1040300' => 'mdo', 'Medtr1g037070' => 'mtr', 'Medtr1g056840' => 'mtr', 'Medtr1g056870' => 'mtr', 'Medtr1g056880' => 'mtr', 'Medtr1g056910' => 'mtr', 'Medtr2g087350' => 'mtr', 'Medtr4g051515' => 'mtr', 'Medtr7g106340' => 'mtr', 'MELO3C008784.2' => 'cme', 'MELO3C009543.2' => 'cme', 'MELO3C014520.2' => 'cme', 'MELO3C015051.2' => 'cme', 'MELO3C015057.2' => 'cme', 'Migut.D02388' => 'egut', 'Migut.D02389' => 'egut', 'Migut.J00696' => 'egut', 'Migut.L01827' => 'egut', 'Migut.L01828' => 'egut', 'Migut.N02452' => 'egut', 'Migut.N02453' => 'egut', 'MSTRG.12389' => 'ama', 'MSTRG.19303' => 'ama', 'MSTRG.4801' => 'ama', 'MSTRG.5893' => 'ama', 'Nitab4.5_0000077g0090' => 'nta', 'Nitab4.5_0000077g0100' => 'nta', 'Nitab4.5_0000157g0010' => 'nta', 'Nitab4.5_0000157g0040' => 'nta', 'Nitab4.5_0000158g0020' => 'nta', 'Nitab4.5_0000158g0040' => 'nta', 'Nitab4.5_0000380g0040' => 'nta', 'Nitab4.5_0001504g0020' => 'nta', 'Nitab4.5_0003068g0100' => 'nta', 'Nitab4.5_0003205g0040' => 'nta', 'Nitab4.5_0003937g0020' => 'nta', 'Nitab4.5_0003937g0040' => 'nta', 'Nitab4.5_0004988g0010' => 'nta', 'Nitab4.5_0008897g0050' => 'nta', 'Nn1g00340' => 'nnu', 'Nn2g14318' => 'nnu', 'Nn2g14319' => 'nnu', 'Nn3g18917' => 'nnu', 'Nn4g25257' => 'nnu', 'Nn6g34677' => 'nnu', 'Nn6g34679' => 'nnu', 'Oeu009040.1' => 'oeu', 'Oeu017720.1' => 'oeu', 'Oeu028648.1' => 'oeu', 'Oeu031453.1' => 'oeu', 'Oeu033709.1' => 'oeu', 'Oeu033710.1' => 'oeu', 'Oeu033714.1' => 'oeu', 'Oeu033715.1' => 'oeu', 'Oeu036107.1' => 'oeu', 'Oeu039428.1' => 'oeu', 'Oeu045050.1' => 'oeu', 'Oeu045051.1' => 'oeu', 'Oeu051466.1' => 'oeu', 'Oeu052612.1' => 'oeu', 'Os01g0865700' => 'osa', 'Os02g0539200' => 'osa', 'Os04g0686000' => 'osa', 'Os12g0161100' => 'osa', 'Peaxi162Scf00010g00362' => 'pax', 'Peaxi162Scf00010g00374' => 'pax', 'Peaxi162Scf00098g00072' => 'pax', 'Peaxi162Scf00345g00098' => 'pax', 'Peaxi162Scf00345g00101' => 'pax', 'Peaxi162Scf00582g00085' => 'pax', 'Peaxi162Scf00910g00211' => 'pax', 'Peaxi162Scf00969g00001' => 'pax', 'Peaxi162Scf52371g00001' => 'pax', 'PGR004G1472' => 'pgr', 'PGR004G1777' => 'pgr', 'PGR119G0721' => 'pgr', 'PGR119G2125' => 'pgr', 'PGR142G2037' => 'pgr', 'PGSC0003DMG400005928' => 'stu', 'PGSC0003DMG400014732' => 'stu', 'PGSC0003DMG400014733' => 'stu', 'PGSC0003DMG400019623' => 'stu', 'PGSC0003DMG400021324' => 'stu', 'PGSC0003DMG400021325' => 'stu', 'PGSC0003DMG400021326' => 'stu', 'PGSC0003DMG400021327' => 'stu', 'PGSC0003DMG400021356' => 'stu', 'PGSC0003DMG400021358' => 'stu', 'PGSC0003DMG400021359' => 'stu', 'PGSC0003DMG400021360' => 'stu', 'PGSC0003DMG401021357' => 'stu', 'Phvul.001G196000' => 'pvu', 'Phvul.005G119100' => 'pvu', 'Phvul.005G119200' => 'pvu', 'Phvul.007G267700' => 'pvu', 'Phvul.007G267800' => 'pvu', 'Phvul.011G099300' => 'pvu', 'Phvul.011G099400' => 'pvu', 'Potri.001G216100' => 'ptr', 'Potri.001G216300' => 'ptr', 'Potri.002G174500' => 'ptr', 'Potri.006G202600' => 'ptr', 'Potri.006G202700' => 'ptr', 'Potri.009G016100' => 'ptr', 'Potri.009G016200' => 'ptr', 'Potri.014G101100' => 'ptr', 'Potri.016G069400' => 'ptr', 'Potri.016G069500' => 'ptr', 'Pp3c8_3110' => 'ppa', 'Prupe.6G145200' => 'ppe', 'Prupe.6G145300' => 'ppe', 'Prupe.7G094000' => 'ppe', 'Prupe.7G094100' => 'ppe', 'Psat0s3079g0040' => 'psa', 'Psat3g028280' => 'psa', 'Psat5g260760' => 'psa', 'Psat5g260880' => 'psa', 'Psat6g119080' => 'psa', 'Psat6g119200' => 'psa', 'PSO339G6565' => 'pso', 'PSO384G3321' => 'pso', 'PSO541G1146' => 'pso', 'PSO675G8619' => 'pso', 'QL01p019540' => 'qlo', 'QL01p019567' => 'qlo', 'QL07p036477' => 'qlo', 'QL07p036518' => 'qlo', 'QL07p036560' => 'qlo', 'QL07p036567' => 'qlo', 'RcHm_v2.0_Chr3g0476021' => 'rch', 'RcHm_v2.0_Chr3g0476101' => 'rch', 'RcHm_v2.0_Chr5g0048571' => 'rch', 'RcHm_v2.0_Chr5g0048581' => 'rch', 'Rhsim03G0064200' => 'rsi', 'Rhsim03G0065000' => 'rsi', 'Rhsim03G0065100' => 'rsi', 'Rhsim03G0065200' => 'rsi', 'Rhsim03G0065300' => 'rsi', 'Rhsim03G0065400' => 'rsi', 'Rhsim03G0065500' => 'rsi', 'Rhsim13G0196600' => 'rsi', 'Rhsim13G0196700' => 'rsi', 'Sabra02G0138800' => 'sbr', 'Sabra06G0155800' => 'sbr', 'Sabra06G0155900' => 'sbr', 'Sabra14G0074400' => 'sbr', 'Sabra16G0070200' => 'sbr', 'Sabra16G0070300' => 'sbr', 'Sabra16G0072400' => 'sbr', 'Sabra16G0127500' => 'sbr', 'Sabra16G0127600' => 'sbr', 'SalBow3G0253' => 'sbo', 'SalBow3G2684' => 'sbo', 'SalBow5G3343' => 'sbo', 'SalBow5G4772' => 'sbo', 'SalBow6G0337' => 'sbo', 'SalBow6G5359' => 'sbo', 'Sc01g0005510' => 'sci', 'Sc12g0004950' => 'sci', 'Sc12g0004960' => 'sci', 'Sed0004017' => 'sed', 'Sed0010262' => 'sed', 'Sed0013851' => 'sed', 'Sed0024039' => 'sed', 'SEGI_06425' => 'sgi', 'SEGI_09269' => 'sgi', 'SEGI_11364' => 'sgi', 'SEGI_26064' => 'sgi', 'SEGI_34093' => 'sgi', 'SEGI_41443' => 'sgi', 'SGA_v2.0_scaffold13G06652' => 'sas', 'SGA_v2.0_scaffold184G40015' => 'sas', 'SGA_v2.0_scaffold22G09810' => 'sas', 'SGA_v2.0_scaffold268G46217' => 'sas', 'SGA_v2.0_scaffold31G12862' => 'sas', 'SMO111G0183' => 'smo', 'Solyc01g007000.4' => 'sly', 'Solyc01g007010.2' => 'sly', 'Solyc01g007020.4' => 'sly', 'Solyc01g007030.3' => 'sly', 'Solyc01g007040.4' => 'sly', 'Solyc01g007050.3' => 'sly', 'Solyc01g009320.2' => 'sly', 'Solyc01g009330.1' => 'sly', 'Solyc06g074140.1' => 'sly', 'Solyc11g068920.1' => 'sly', 'Solyc11g068940.1' => 'sly', 'Sopen01g002990' => 'spe', 'Sopen01g003000' => 'spe', 'Sopen01g003010' => 'spe', 'Sopen01g003020' => 'spe', 'Sopen01g003030' => 'spe', 'Sopen01g004820' => 'spe', 'Sopen01g004830' => 'spe', 'Sopen06g030570' => 'spe', 'Sopen11g027630' => 'spe', 'Sopen11g027650' => 'spe', 'Sp3g10070' => 'spa', 'Sp4g18180' => 'spa', 'Sp5g09850' => 'spa', 'TAR304G0002' => 'tar', 'TAR369G0175' => 'tar', 'TAR369G0533' => 'tar', 'TAR369G0790' => 'tar', 'TAR375G0620' => 'tar', 'TAR623G1041' => 'tar', 'TAR623G1473' => 'tar', 'TAR623G1720' => 'tar', 'TAR629G0839' => 'tar', 'TAR633G1992' => 'tar', 'TAR636G0949' => 'tar', 'TAR636G1239' => 'tar', 'THA.LOC104803899' => 'tha', 'THA.LOC104815175' => 'tha', 'THA.LOC104816641' => 'tha', 'Thecc.05G105300' => 'tca', 'Thecc.05G105500' => 'tca', 'Thecc.09G156900' => 'tca', 'Thecc.09G271500' => 'tca', 'Thecc.09G271600' => 'tca', 'Thhalv10010389m.g' => 'esa', 'Thhalv10016730m.g' => 'esa', 'Thhalv10020668m.g' => 'esa', 'TPR.G18964' => 'tpr', 'TPR.G2818' => 'tpr', 'TPR.G2819' => 'tpr', 'TPR.G31293' => 'tpr', 'TPR.G34494' => 'tpr', 'TPR.G39226' => 'tpr', 'TPR.G39987' => 'tpr', 'TPR.G4205' => 'tpr', 'TPR.G4208' => 'tpr', 'TPR.G836' => 'tpr', 'TWI31G0228' => 'twi', 'TWI53G0896' => 'twi', 'TWI53G1781' => 'twi', 'TWI74G0091' => 'twi', 'TWI79G0743' => 'twi', 'TWI79G0787' => 'twi', 'unitig_22.g5142' => 'ugi', 'unitig_27.g25026' => 'ugi', 'unitig_578.g15810' => 'ugi', 'unitig_578.g16359' => 'ugi', 'unitig_8.g3555' => 'ugi', 'unitig_8.g4732' => 'ugi', 'unitig_8.g4976' => 'ugi', 'vmacro03954' => 'vma', 'vmacro07470' => 'vma', 'vmacro07471' => 'vma', 'vmacro07472' => 'vma', 'vmacro17119' => 'vma', 'VMungo0720G1108' => 'vmu', 'VMungo0720G2470' => 'vmu', 'VMungo1080G0014' => 'vmu', 'VMungo1080G0772' => 'vmu', 'VMungo1127G1371' => 'vmu', 'VMungo1127G1809' => 'vmu', 'VMungo1383G2574' => 'vmu', 'Zm00001eb065620' => 'zma', 'Zm00001eb083490' => 'zma', 'Zm00001eb146830' => 'zma', 'Zm00001eb243070' => 'zma', 'Zm00001eb407250' => 'zma' ) $gf_id = 'ORTHO05D000742' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'ORTHO05D000742' ) $data_identifier = 'ORTHO05D000742' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 4, 'ach' => (int) 8, 'amhyb' => (int) 4, 'aly' => (int) 3, 'aox' => (int) 2, 'arhy' => (int) 5, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 8, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 3, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 5, 'camsi' => (int) 7, 'dca' => (int) 7, 'din' => (int) 10, 'dzi' => (int) 10, 'eca' => (int) 7, 'bvu' => (int) 5, 'egr' => (int) 14, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 14, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 3, 'han' => (int) 14, 'cav' => (int) 6, 'hma' => (int) 1, 'vpl' => (int) 8, 'lal' => (int) 9, 'lonja' => (int) 10, 'lja' => (int) 6, 'lsa' => (int) 10, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 7, 'mtr' => (int) 8, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 4, 'nta' => (int) 14, 'nnu' => (int) 7, 'oeu' => (int) 14, 'osa' => (int) 4, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 13, 'pvu' => (int) 7, 'ptr' => (int) 10, 'ppa' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 4, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 9, 'sbr' => (int) 9, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 4, 'sgi' => (int) 6, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 11, 'spe' => (int) 10, 'spa' => (int) 3, 'tar' => (int) 12, 'tha' => (int) 3, 'tca' => (int) 5, 'esa' => (int) 3, 'tpr' => (int) 10, 'twi' => (int) 6, 'ugi' => (int) 7, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb407250' $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